2xzl - Revision history

OCA at 10:42, 20 December 2023

OCA — Wed, 20 Dec 2023 10:42:24 GMT

←Older revision		Revision as of 10:42, 20 December 2023
Line 3:		Line 3:
	<StructureSection load='2xzl' size='340' side='right'caption='[[2xzl]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2xzl' size='340' side='right'caption='[[2xzl]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2xzl]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/~~Atcc_18824 Atcc 18824~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XZL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XZL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2xzl]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae] and [https://en.wikipedia.org/wiki/Synthetic_construct Synthetic construct]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XZL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XZL FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ALF:TETRAFLUOROALUMINATE+ION'>ALF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene~~></td></tr>~~	+	</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models\|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution\|Resolution]] 2.4Å</td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </span></td></tr>	+	<tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ALF:TETRAFLUOROALUMINATE+ION'>ALF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2xzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xzl OCA], [https://pdbe.org/2xzl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xzl RCSB], [https://www.ebi.ac.uk/pdbsum/2xzl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xzl ProSAT]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2xzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xzl OCA], [https://pdbe.org/2xzl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xzl RCSB], [https://www.ebi.ac.uk/pdbsum/2xzl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xzl ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[https://www.uniprot.org/uniprot/~~NAM7_YEAST NAM7_YEAST~~]~~] Probable~~ helicase ~~involved in mitochondrial functions. Required~~ for ~~rapid turnover~~ of mRNAs containing a premature ~~translational termination codon~~.	+	[https://www.uniprot.org/uniprot/RENT1_YEAST RENT1_YEAST] RNA-dependent helicase required for nonsense-mediated decay (NMD) of aberrant mRNAs containing premature stop codons and modulates the expression level of normal mRNAs (PubMed:8896465, PubMed:30218034). Also capable of unwinding double-stranded DNA and translocating on single-stranded DNA (PubMed:30218034).<ref>PMID:30218034</ref> <ref>PMID:8896465</ref>
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
Line 26:		Line 26:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
-	[[Category: Atcc 18824]]
	[[Category: Large Structures]]		[[Category: Large Structures]]
-	[[Category: ~~RNA helicase~~]]	+	[[Category: Saccharomyces cerevisiae]]
-	[[Category: Basquin, C]]	+	[[Category: Synthetic construct]]
-	[[Category: Bonneau, F]]	+	[[Category: Basquin C]]
-	[[Category: Chakrabarti, S]]	+	[[Category: Bonneau F]]
-	[[Category: Conti, E]]	+	[[Category: Chakrabarti S]]
-	[[Category: Domcke, S]]	+	[[Category: Conti E]]
-	[[Category: Fiorini, F]]	+	[[Category: Domcke S]]
-	~~[[Category: Hir, H Le~~]]	+	[[Category: Fiorini F]]
-	[[Category: Jayachandran, U]]	+	[[Category: Jayachandran U]]
-	[[Category: ~~Allosteric regulation]]~~	+	[[Category: Le Hir H]]
-	~~[[Category: Hydrolase-rna complex]]~~	+
-	~~[[Category: Nmd]]~~	+
-	~~[[Category: Rna degradation~~]]	+

OCA at 12:20, 27 April 2022

OCA — Wed, 27 Apr 2022 12:20:33 GMT

←Older revision		Revision as of 12:20, 27 April 2022
Line 3:		Line 3:
	<StructureSection load='2xzl' size='340' side='right'caption='[[2xzl]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2xzl' size='340' side='right'caption='[[2xzl]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2xzl]] is a 2 chain structure with sequence from [~~http~~://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XZL OCA]. For a <b>guided tour on the structure components</b> use [~~http~~://proteopedia.org/fgij/fg.htm?mol=2XZL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2xzl]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XZL OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2XZL FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ALF:TETRAFLUOROALUMINATE+ION'>ALF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ALF:TETRAFLUOROALUMINATE+ION'>ALF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [~~http~~://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </span></td></tr>	+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[https://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [https://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[~~http~~://proteopedia.org/fgij/fg.htm?mol=2xzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xzl OCA], [~~http~~://pdbe.org/2xzl PDBe], [~~http~~://www.rcsb.org/pdb/explore.do?structureId=2xzl RCSB], [~~http~~://www.ebi.ac.uk/pdbsum/2xzl PDBsum], [~~http~~://prosat.h-its.org/prosat/prosatexe?pdbcode=2xzl ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2xzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xzl OCA], [https://pdbe.org/2xzl PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2xzl RCSB], [https://www.ebi.ac.uk/pdbsum/2xzl PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2xzl ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
-	[[~~http~~://www.uniprot.org/uniprot/NAM7_YEAST NAM7_YEAST]] Probable helicase involved in mitochondrial functions. Required for rapid turnover of mRNAs containing a premature translational termination codon.	+	[[https://www.uniprot.org/uniprot/NAM7_YEAST NAM7_YEAST]] Probable helicase involved in mitochondrial functions. Required for rapid turnover of mRNAs containing a premature translational termination codon.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==

OCA at 12:28, 22 July 2020

OCA — Wed, 22 Jul 2020 12:28:20 GMT

←Older revision		Revision as of 12:28, 22 July 2020
Line 1:		Line 1:

	==Upf1-RNA complex==		==Upf1-RNA complex==
-	<StructureSection load='2xzl' size='340' side='right' caption='[[2xzl]], [[Resolution\|resolution]] 2.40Å' scene=''>	+	<StructureSection load='2xzl' size='340' side='right'caption='[[2xzl]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2xzl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XZL OCA]. For a <b>guided tour on the structure components</b> use [http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2XZL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2xzl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XZL OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=2XZL FirstGlance]. <br>
-	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ALF:TETRAFLUOROALUMINATE+ION'>ALF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>	+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ALF:TETRAFLUOROALUMINATE+ION'>ALF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://~~oca~~.~~weizmann.ac.il/oca-docs~~/fgij/fg.htm?mol=2xzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xzl OCA], [http://pdbe.org/2xzl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xzl RCSB], [http://www.ebi.ac.uk/pdbsum/2xzl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2xzl ProSAT]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=2xzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xzl OCA], [http://pdbe.org/2xzl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xzl RCSB], [http://www.ebi.ac.uk/pdbsum/2xzl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2xzl ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 21:		Line 21:

	==See Also==		==See Also==
-	*[[Helicase\|Helicase]]	+	*[[Helicase 3D structures\|Helicase 3D structures]]
	== References ==		== References ==
	<references/>		<references/>
Line 27:		Line 27:
	</StructureSection>		</StructureSection>
	[[Category: Atcc 18824]]		[[Category: Atcc 18824]]
		+	[[Category: Large Structures]]
	[[Category: RNA helicase]]		[[Category: RNA helicase]]
	[[Category: Basquin, C]]		[[Category: Basquin, C]]

OCA at 09:33, 10 October 2018

OCA — Wed, 10 Oct 2018 09:33:11 GMT

←Older revision		Revision as of 09:33, 10 October 2018
Line 1:		Line 1:
		+
	==Upf1-RNA complex==		==Upf1-RNA complex==
	<StructureSection load='2xzl' size='340' side='right' caption='[[2xzl]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2xzl' size='340' side='right' caption='[[2xzl]], [[Resolution\|resolution]] 2.40Å' scene=''>
Line 5:		Line 6:
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ALF:TETRAFLUOROALUMINATE+ION'>ALF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ALF:TETRAFLUOROALUMINATE+ION'>ALF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2xzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xzl OCA], [http://pdbe.org/2xzl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xzl RCSB], [http://www.ebi.ac.uk/pdbsum/2xzl PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2xzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xzl OCA], [http://pdbe.org/2xzl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xzl RCSB], [http://www.ebi.ac.uk/pdbsum/2xzl PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=2xzl ProSAT]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==

OCA at 07:04, 16 December 2015

OCA — Wed, 16 Dec 2015 07:04:18 GMT

←Older revision		Revision as of 07:04, 16 December 2015
Line 1:		Line 1:
-	==~~UPF1~~-RNA ~~COMPLEX~~==	+	==Upf1-RNA complex==
	<StructureSection load='2xzl' size='340' side='right' caption='[[2xzl]], [[Resolution\|resolution]] 2.40Å' scene=''>		<StructureSection load='2xzl' size='340' side='right' caption='[[2xzl]], [[Resolution\|resolution]] 2.40Å' scene=''>
	== Structural highlights ==		== Structural highlights ==
-	<table><tr><td colspan='2'>[[2xzl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/~~Saccharomyces_cerevisiae Saccharomyces cerevisiae~~]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XZL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XZL FirstGlance]. <br>	+	<table><tr><td colspan='2'>[[2xzl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Atcc_18824 Atcc 18824]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XZL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XZL FirstGlance]. <br>
	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ALF:TETRAFLUOROALUMINATE+ION'>ALF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>		</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ALF:TETRAFLUOROALUMINATE+ION'>ALF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
-	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DU:2-DEOXYURIDINE-5-MONOPHOSPHATE'>DU</scene></td></tr>
	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </span></td></tr>		<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </span></td></tr>
-	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2xzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xzl OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xzl RCSB], [http://www.ebi.ac.uk/pdbsum/2xzl PDBsum]</span></td></tr>	+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2xzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xzl OCA], [http://pdbe.org/2xzl PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=2xzl RCSB], [http://www.ebi.ac.uk/pdbsum/2xzl PDBsum]</span></td></tr>
	</table>		</table>
	== Function ==		== Function ==
Line 18:		Line 17:
	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>		From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
	</div>		</div>
		+	<div class="pdbe-citations 2xzl" style="background-color:#fffaf0;"></div>

	==See Also==		==See Also==
Line 25:		Line 25:
	__TOC__		__TOC__
	</StructureSection>		</StructureSection>
		+	[[Category: Atcc 18824]]
	[[Category: RNA helicase]]		[[Category: RNA helicase]]
-	[[Category: Saccharomyces cerevisiae]]
	[[Category: Basquin, C]]		[[Category: Basquin, C]]
	[[Category: Bonneau, F]]		[[Category: Bonneau, F]]

OCA at 06:44, 25 December 2014

OCA — Thu, 25 Dec 2014 06:44:06 GMT

←Older revision		Revision as of 06:44, 25 December 2014
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	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2xzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xzl OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xzl RCSB], [http://www.ebi.ac.uk/pdbsum/2xzl PDBsum]</span></td></tr>		<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2xzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xzl OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xzl RCSB], [http://www.ebi.ac.uk/pdbsum/2xzl PDBsum]</span></td></tr>
	</table>		</table>
		+	== Function ==
		+	[[http://www.uniprot.org/uniprot/NAM7_YEAST NAM7_YEAST]] Probable helicase involved in mitochondrial functions. Required for rapid turnover of mRNAs containing a premature translational termination codon.
	<div style="background-color:#fffaf0;">		<div style="background-color:#fffaf0;">
	== Publication Abstract from PubMed ==		== Publication Abstract from PubMed ==
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	[[Category: RNA helicase]]		[[Category: RNA helicase]]
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
-	[[Category: Basquin, C.]]	+	[[Category: Basquin, C]]
-	[[Category: Bonneau, F.]]	+	[[Category: Bonneau, F]]
-	[[Category: Chakrabarti, S.]]	+	[[Category: Chakrabarti, S]]
-	[[Category: Conti, E.]]	+	[[Category: Conti, E]]
-	[[Category: Domcke, S.]]	+	[[Category: Domcke, S]]
-	[[Category: Fiorini, F.]]	+	[[Category: Fiorini, F]]
-	[[Category: Hir, H Le.]]	+	[[Category: Hir, H Le]]
-	[[Category: Jayachandran, U.]]	+	[[Category: Jayachandran, U]]
	[[Category: Allosteric regulation]]		[[Category: Allosteric regulation]]
	[[Category: Hydrolase-rna complex]]		[[Category: Hydrolase-rna complex]]
	[[Category: Nmd]]		[[Category: Nmd]]
	[[Category: Rna degradation]]		[[Category: Rna degradation]]

OCA at 13:15, 22 October 2014

OCA — Wed, 22 Oct 2014 13:15:30 GMT

←Older revision		Revision as of 13:15, 22 October 2014
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-	[[~~Image:~~2xzl.~~png~~\|~~left~~\|~~200px~~]]	+	==UPF1-RNA COMPLEX==
		+	<StructureSection load='2xzl' size='340' side='right' caption='[[2xzl]], [[Resolution\|resolution]] 2.40Å' scene=''>
		+	== Structural highlights ==
		+	<table><tr><td colspan='2'>[[2xzl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XZL OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2XZL FirstGlance]. <br>
		+	</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand\|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=1PE:PENTAETHYLENE+GLYCOL'>1PE</scene>, <scene name='pdbligand=ADP:ADENOSINE-5-DIPHOSPHATE'>ADP</scene>, <scene name='pdbligand=ALF:TETRAFLUOROALUMINATE+ION'>ALF</scene>, <scene name='pdbligand=MG:MAGNESIUM+ION'>MG</scene>, <scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr>
		+	<tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue\|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=DU:2-DEOXYURIDINE-5-MONOPHOSPHATE'>DU</scene></td></tr>
		+	<tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/RNA_helicase RNA helicase], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=3.6.4.13 3.6.4.13] </span></td></tr>
		+	<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2xzl FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2xzl OCA], [http://www.rcsb.org/pdb/explore.do?structureId=2xzl RCSB], [http://www.ebi.ac.uk/pdbsum/2xzl PDBsum]</span></td></tr>
		+	</table>
		+	<div style="background-color:#fffaf0;">
		+	== Publication Abstract from PubMed ==
		+	Upf1 is a crucial factor in nonsense-mediated mRNA decay, the eukaryotic surveillance pathway that degrades mRNAs containing premature stop codons. The essential RNA-dependent ATPase activity of Upf1 is triggered by the formation of the surveillance complex with Upf2-Upf3. We report crystal structures of Upf1 in the presence and absence of the CH domain, captured in the transition state with ADP:AlF(4)(-) and RNA. In isolation, Upf1 clamps onto the RNA, enclosing it in a channel formed by both the catalytic and regulatory domains. Upon binding to Upf2, the regulatory CH domain of Upf1 undergoes a large conformational change, causing the catalytic helicase domain to bind RNA less extensively and triggering its helicase activity. Formation of the surveillance complex thus modifies the RNA binding properties and the catalytic activity of Upf1, causing it to switch from an RNA-clamping mode to an RNA-unwinding mode.

-	~~{{STRUCTURE_2xzl\| PDB=2xzl \| SCENE= }}~~	+	Molecular Mechanisms for the RNA-Dependent ATPase Activity of Upf1 and Its Regulation by Upf2.,Chakrabarti S, Jayachandran U, Bonneau F, Fiorini F, Basquin C, Domcke S, Le Hir H, Conti E Mol Cell. 2011 Mar 18;41(6):693-703. PMID:21419344<ref>PMID:21419344</ref>

-	~~===UPF1-RNA COMPLEX===~~	+	From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
-		+	</div>
-	~~{{ABSTRACT_PUBMED_21419344}}~~	+
-		+
-	~~==About this Structure==~~	+
-	~~[[2xzl]] is~~ a ~~2 chain structure with sequence from [http://en~~.~~wikipedia~~.~~org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]~~. ~~Full crystallographic information is available from [http:~~/~~/oca.weizmann.ac.il/oca-bin/ocashort?id=2XZL OCA].~~	+

	==See Also==		==See Also==
	*[[Helicase\|Helicase]]		*[[Helicase\|Helicase]]
-		+	== References ==
-	==~~Reference~~==	+	<references/>
-	<~~ref group="xtra">PMID:021419344<~~/~~ref~~><~~references group="xtra"~~/>	+	__TOC__
		+	</StructureSection>
	[[Category: RNA helicase]]		[[Category: RNA helicase]]
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]

OCA at 13:47, 20 October 2012

OCA — Sat, 20 Oct 2012 13:47:45 GMT

←Older revision		Revision as of 13:47, 20 October 2012
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	==About this Structure==		==About this Structure==
-	[[2xzl]] is a 2 chain structure ~~of [[Helicase]]~~ with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XZL OCA].	+	[[2xzl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XZL OCA].

	==See Also==		==See Also==

OCA at 13:08, 26 July 2012

OCA — Thu, 26 Jul 2012 13:08:05 GMT

←Older revision		Revision as of 13:08, 26 July 2012
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-	[[Image:2xzl.~~jpg~~\|left\|200px]]	+	[[Image:2xzl.png\|left\|200px]]

-	<!--
-	The line below this paragraph, containing "STRUCTURE_2xzl", creates the "Structure Box" on the page.
-	You may change the PDB parameter (which sets the PDB file loaded into the applet)
-	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-	or leave the SCENE parameter empty for the default display.
-	-->
	{{STRUCTURE_2xzl\| PDB=2xzl \| SCENE= }}		{{STRUCTURE_2xzl\| PDB=2xzl \| SCENE= }}

	===UPF1-RNA COMPLEX===		===UPF1-RNA COMPLEX===

-
-	<!--
-	The line below this paragraph, {{ABSTRACT_PUBMED_21419344}}, adds the Publication Abstract to the page
-	(as it appears on PubMed at http://www.pubmed.gov), where 21419344 is the PubMed ID number.
-	-->
	{{ABSTRACT_PUBMED_21419344}}		{{ABSTRACT_PUBMED_21419344}}

	==About this Structure==		==About this Structure==
-	[[2xzl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XZL OCA].	+	[[2xzl]] is a 2 chain structure of [[Helicase]] with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XZL OCA].
		+
		+	==See Also==
		+	*[[Helicase\|Helicase]]

	==Reference==		==Reference==
-	<ref group="xtra">PMID:~~21419344~~</ref><references group="xtra"/>	+	<ref group="xtra">PMID:021419344</ref><references group="xtra"/>
	[[Category: RNA helicase]]		[[Category: RNA helicase]]
	[[Category: Saccharomyces cerevisiae]]		[[Category: Saccharomyces cerevisiae]]
Line 33:		Line 25:
	[[Category: Hir, H Le.]]		[[Category: Hir, H Le.]]
	[[Category: Jayachandran, U.]]		[[Category: Jayachandran, U.]]
		+	[[Category: Allosteric regulation]]
		+	[[Category: Hydrolase-rna complex]]
		+	[[Category: Nmd]]
		+	[[Category: Rna degradation]]

OCA at 08:05, 30 March 2011

OCA — Wed, 30 Mar 2011 08:05:43 GMT

←Older revision		Revision as of 08:05, 30 March 2011
Line 1:		Line 1:
-	~~'''Unreleased structure'''~~	+	[[Image:2xzl.jpg\|left\|200px]]

-	The ~~entry 2xzl~~ is ~~ON HOLD~~ ~~until Paper Publication~~	+	<!--
		+	The line below this paragraph, containing "STRUCTURE_2xzl", creates the "Structure Box" on the page.
		+	You may change the PDB parameter (which sets the PDB file loaded into the applet)
		+	or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
		+	or leave the SCENE parameter empty for the default display.
		+	-->
		+	{{STRUCTURE_2xzl\| PDB=2xzl \| SCENE= }}

-	~~Authors: Chakrabarti, S., Jayachandran, U., Bonneau, F., Fiorini, F., Basquin, C., Domcke, S., Le Hir, H., Conti, E.~~	+	===UPF1-RNA COMPLEX===

-	~~Description~~: ~~Upf1~~-RNA ~~complex~~	+
		+	<!--
		+	The line below this paragraph, {{ABSTRACT_PUBMED_21419344}}, adds the Publication Abstract to the page
		+	(as it appears on PubMed at http://www.pubmed.gov), where 21419344 is the PubMed ID number.
		+	-->
		+	{{ABSTRACT_PUBMED_21419344}}
		+
		+	==About this Structure==
		+	[[2xzl]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Saccharomyces_cerevisiae Saccharomyces cerevisiae]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2XZL OCA].
		+
		+	==Reference==
		+	<ref group="xtra">PMID:21419344</ref><references group="xtra"/>
		+	[[Category: RNA helicase]]
		+	[[Category: Saccharomyces cerevisiae]]
		+	[[Category: Basquin, C.]]
		+	[[Category: Bonneau, F.]]
		+	[[Category: Chakrabarti, S.]]
		+	[[Category: Conti, E.]]
		+	[[Category: Domcke, S.]]
		+	[[Category: Fiorini, F.]]
		+	[[Category: Hir, H Le.]]
		+	[[Category: Jayachandran, U.]]